Error in data.frame(ASSIGN = "ASSIGN parameters", version = as.character(utils::packageVersion("ASSIGN")), : arguments imply differing number of rows: 1, 0
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yueli7 ▴ 10
@yueli7-8401
Last seen 3 months ago
China

Hello, I was using ASSIGN package go through the demo data.

Thanks in advance for any help!

Best,

Yue

> library(ASSIGN)
> 
> dir.create("tempdir")
Warning message:
In dir.create("tempdir") : 'tempdir' already exists
> tempdir <- "tempdir"
> data(trainingData1)
> data(testData1)
> data(geneList1)
> trainingLabel1 <- list(control = list(bcat=1:10, e2f3=1:10,
+                                       myc=1:10, ras=1:10, src=1:10),
+                        bcat = 11:19, e2f3 = 20:28, myc= 29:38,
+                        ras = 39:48, src = 49:55)
> testLabel1 <- rep(c("Adeno", "Squamous"), c(53,58))
> dir.create(file.path(tempdir,"wrapper_example2"))
Warning message:
In dir.create(file.path(tempdir, "wrapper_example2")) :
  'tempdir/wrapper_example2' already exists
> assign.wrapper(trainingData=trainingData1, testData=testData1,
+                trainingLabel=trainingLabel1, testLabel=NULL,
+                geneList=geneList1, n_sigGene=NULL, adaptive_B=TRUE,
+                adaptive_S=FALSE, mixture_beta=TRUE,
+                outputDir=file.path(tempdir,"wrapper_example2"),
+                iter=2000, burn_in=1000)
Performing QC on the input data...
Generating starting/prior values for model parameters...
Estimating model parameters in the training dataset...
Start Gibbs sampling...
| 0%                                  50%                                 100% |
================================================================================
Estimating model parameters in the test dataset...
Start Gibbs sampling...
| 0%                                  50%                                 100% |
================================================================================
Outputing results...
Error in data.frame(ASSIGN = "ASSIGN parameters", version = as.character(utils::packageVersion("ASSIGN")),  : 
  arguments imply differing number of rows: 1, 0


> sessionInfo()
R version 3.6.1 (2019-07-05)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 18.04.3 LTS

Matrix products: default
BLAS:   /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.7.1
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.7.1

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C               LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8    
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8    LC_PAPER=en_US.UTF-8       LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C             LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] ASSIGN_1.25.0

loaded via a namespace (and not attached):
 [1] compiler_3.6.1  Rlab_2.15.1     Matrix_1.2-17   tools_3.6.1     expm_0.999-4    survival_3.2-3 
 [7] msm_1.6.8       mvtnorm_1.1-1   splines_3.6.1   grid_3.6.1      lattice_0.20-41

software error assign • 163 views
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